Controlled synthesis of polymeric perylene diimide and applications thereof

ABSTRACT

Perylene diimide phosphoramidite derivatives and methods for polymerization of perylene diimide phosphoramidite derivatives and applications thereof are provided. Compounds comprise at least an electronically active base surrogate and may also include a solubilizing functionality. The base surrogate may be comprised of an electrochemically active perylene diimide (PDI) molecule, the solubility chain may comprise a PEG functionality, and the PDI may further comprise a phosphoramidite functionality as an imide substituent. The phosphoramidite functionality may be used as a chemical coupling handle for use with established nucleic acid synthesis protocols and/or automated synthesis. One or more aromatic core functionalizations may be incorporated into the PDI molecules to allow for tuning the molecule&#39;s electronic and optical properties. One or more functional terminal groups may be incorporated into the PDI molecules, such as, for example terminal thiols for attachment to gold substrates and terminal ferrocenes for electrochemical measurements, among others.

CROSS REFERENCE TO RELATED APPLICATIONS

This application is a continuation of U.S. patent application Ser. No.15/707,851, filed Sep. 18, 2017, entitled “Controlled Synthesis ofPolymeric Perylene Diimide and Applications Thereof” to Mazaheripour etal., which claims priority to U.S. Provisional Application No.62/396,020, entitled “Perylenediimide Phosphoramidites for AutomatedSynthetic Manipulations and their Applications” to Mazaheripour et al.,filed Sep. 16, 2016, which is incorporated herein by reference in itsentirety.

STATEMENT REGARDING FEDERALLY SPONSORED RESEARCH

This invention was made with Government support under Grant No.FA9550-13-1-0096, awarded by the AFSOR. The Government has certainrights to this invention.

FIELD OF THE INVENTION

The current disclosure is directed to compounds and methods forcontrolled synthesis of polymeric perylene diimide derivatives andapplications thereof.

BACKGROUND OF THE INVENTION

Perylene-containing compounds, such as perylene diimide (PDI)derivatives, are dyes possessing intense visible light absorption, highphotochemical and air stability, strong electron-accepting ability, andnear-unity fluorescence quantum yields. These advantageous propertiesare derived from PDIs' molecular structure, based on a rigid, fusedaromatic core, which favors π-π intermolecular interactions, and ishighly amenable to functionalization (See FIG. 1). Collectively, theiroutstanding chemical and physical properties make perylene derivativesattractive as pigments, materials for optoelectronic devices, andfluorescent labels for biological systems.

Due to their optical characteristics, as well as excellent chemical,photo, thermal, and mechanical stabilities, perylene diimides have longestablished themselves as important industrial pigments, especially intextile and high-grade paint industries. However, more recently, newapplications for PDI derivatives have emerged in conjunction with theirfavorable photophysical and electronic properties, such as high molarabsorption coefficients, reversible redox chemistry, and excellentcharge transport behavior. For example, certain PDI derivatives haveattracted interest as photovoltaic functional materials, as they exhibitn-type behavior, strong electron-accepting character, and high electronmobilities. To date, PDIs in general have been utilized in various typesof optical and electronic devices, as diverse as organic field-effecttransistors (OFETs), fluorescent solar collectors, electrophotographicsystems, dye-based lasers, and organic photovoltaic cells (OPVs).

BRIEF SUMMARY OF THE INVENTION

Many embodiments of the invention are directed to an engineered perylenediimide polymer having a phosphate backbone that comprises:

such that T1 and T2 are termini; n is a positive integer; and PDI is aperylene diimide that comprises:

such that N is an imide, and a first imide is covalently linked to thephosphate backbone; a second imide is functionalized with a substituentselected from the group consisting of H, alkyl, aryl, polyethyleneglycol, Newkome-type carboxylates, phosphate surfactants, polyglyceroldendrons, and clycodextrin; and positions 1, 2, 5, 6, 7, 8, 11, and 12are functionalized with a substituent selected from the group consistingof H, F, Cl, Br, CN, alkyl group, aryl group, aryloxy group,polyethylene glycol, and electron-withdrawing/donating groups.

In further embodiments, the polymer is engineered to a precise lengthand sequence such that a collection of polymers is monodisperse.

In more embodiments, n is equal to four.

In even further embodiments, n is greater than 20.

In even more embodiments, n is greater than 100.

In even further more embodiments, at least two perylene diimides, eachhaving a different chemical structure, are incorporated into thepolymer.

In even further more embodiments, the polymer has an engineered sequenceof perylene diimides.

In even further more embodiments, at least one perylene diimide isfunctionalized on at least one position selected from the group ofpositions 1, 2, 5, 6, 7, 8, 11, and 12 with a substituent selected fromthe group consisting of F, Cl, Br, CN, alkyl group, aryl group, aryloxygroup, polyethylene glycol, and electron-withdrawing/donating groups.

In even further more embodiments, at least one perylene diimide isfunctionalized on a second imide with polyethylene glycol.

In even further more embodiments, at least one perylene diimide isfunctionalized on at least two positions selected from the group ofpositions 1, 2, 5, 6, 7, 8, 11, and 12 with a substituent selected fromthe group consisting of F, Cl, Br, CN, alkyl group, aryl group, aryloxygroup, polyethylene glycol, and electron-withdrawing/donating groups.

In even further more embodiments, at least two perylene diimides arefunctionalized on at least one position selected from the group ofpositions 1, 2, 5, 6, 7, 8, 11, and 12 with a substituent selected fromthe group consisting of F, Cl, Br, CN, alkyl group, aryl group, aryloxygroup, polyethylene glycol, and electron-withdrawing/donating groups.

In even further more embodiments, at least two perylene diimides arefunctionalized on a second imide with polyethylene glycol.

In even further more embodiments, T1 and T2 are each independentlyselected from the group consisting of an amino group, a hydroxyl group,a carbonyl group, ferrocene and thiol.

Many embodiments of the invention are directed to a method of forming aperylene diimide polymer having a phosphate backbone that comprisesproviding a plurality of perylene diimides that comprises:

such that N is an imide, and such that a first imide is covalentlylinked to a phosphate functionality, a second imide is functionalizedwith a substituent selected from the group consisting of H, alkyl, aryl,polyethylene glycol, Newkome-type carboxylates, phosphate surfactants,polyglycerol dendrons, and clycodextrin; and positions 1, 2, 5, 6, 7, 8,11, and 12 are functionalized with a substituent selected from the groupconsisting of H, F, Cl, Br, CN, alkyl group, aryl group, aryloxy group,polyethylene glycol, and electron-withdrawing/donating groups.

The method further comprises iteratively and sequentially linking aplurality of the perylene diimides through via the phosphatefunctionality to form the phosphate backbone through a nucleosidepolymerization protocol such that a specific arrangement and number, n,of perylene diimides is obtained, and selectively terminating thepolymer with termini T1 and T2.

In further embodiments, n is equal to four.

In more embodiments, n is greater than 20.

In even further embodiments, n is greater than 100.

In even more embodiments, the phosphate is a phosphoramidite.

In even further more embodiments, at least two perylene diimides, eachhaving a different chemical structure, are incorporated into thepolymer.

In even further more embodiments, at least one perylene diimide isfunctionalized on a position selected from the group of positions 1, 2,5, 6, 7, 8, 11, and 12 with a substituent selected from the groupconsisting of F, Cl, Br, CN, alkyl group, aryl group, aryloxy group,polyethylene glycol, and electron-withdrawing/donating groups.

In even further more embodiments, at least one perylene diimide isfunctionalized on a second imide with polyethylene glycol.

In even further more embodiments, at least one perylene diimide isfunctionalized on at least two positions selected from the group ofpositions 1, 2, 5, 6, 7, 8, 11, and 12 with a substituent selected fromthe group consisting of F, Cl, Br, CN, alkyl group, aryl group, aryloxygroup, polyethylene glycol, and electron-withdrawing/donating groups.

In even further more embodiments, at least two perylene diimides arefunctionalized on at least one position selected from the group ofpositions 1, 2, 5, 6, 7, 8, 11, and 12 with a substituent selected fromthe group consisting of F, Cl, Br, CN, alkyl group, aryl group, aryloxygroup, polyethylene glycol, and electron-withdrawing/donating groups.

In even further more embodiments, at least two perylene diimides arefunctionalized on a second imide with polyethylene glycol.

In even further more embodiments, T1 and T2 are each independentlyselected from the group consisting of an amino group, a hydroxyl group,a carbonyl group, ferrocene and thiol.

Many embodiments of the invention are directed to an organic nanowirethat comprises a perylene diimide polymer having a phosphate backbonethat comprises:

such that T1 and T2 are termini; n is a positive integer; and PDI is aperylene diimide comprising:

such that N is an imide, and a first imide is covalently linked to thephosphate backbone; a second imide is functionalized with a substituentselected from the group consisting of H, alkyl, aryl, polyethyleneglycol, Newkome-type carboxylates, phosphate surfactants, polyglyceroldendrons, and clycodextrin; and positions 1, 2, 5, 6, 7, 8, 11, and 12are functionalized with a substituent selected from the group consistingof H, F, Cl, Br, CN, alkyl group, aryl group, aryloxy group,polyethylene glycol, and electron-withdrawing/donating groups.

In further embodiments, the polymer is engineered to a precise lengthand sequence such that a collection of polymers is monodisperse.

In more embodiments, at least two perylene diimides, each having adifferent chemical structure, are incorporated into the polymer.

In even further embodiments, at least one perylene diimide isfunctionalized on at least one position selected from the group ofpositions 1, 2, 5, 6, 7, 8, 11, and 12 with a substituent selected fromthe group consisting of F, Cl, Br, CN, alkyl group, aryl group, aryloxygroup, polyethylene glycol, and electron-withdrawing/donating groups.

In even more embodiments, at least one perylene diimide isfunctionalized on at least two positions selected from the group ofpositions 1, 2, 5, 6, 7, 8, 11, and 12 with a substituent selected fromthe group consisting of F, Cl, Br, CN, alkyl group, aryl group, aryloxygroup, polyethylene glycol, and electron-withdrawing/donating groups.

In even further more embodiments, at least two perylene diimides arefunctionalized on at least one position selected from the group ofpositions 1, 2, 5, 6, 7, 8, 11, and 12 with a substituent selected fromthe group consisting of F, Cl, Br, CN, alkyl group, aryl group, aryloxygroup, polyethylene glycol, and electron-withdrawing/donating groups.

In even further more embodiments, T1 and T2 are each independentlyselected from the group consisting of an amino group, a hydroxyl group,a carbonyl group, ferrocene and thiol.

In even further more embodiments, the organic nanowire is incorporatedinto an electronic device.

In even further more embodiments, the electronic device is an organicfield-effect transistor.

BRIEF DESCRIPTION OF THE DRAWINGS

The description will be more fully understood with reference to thefollowing figures, which are presented as exemplary embodiments of theinvention and should not be construed as a complete recitation of thescope of the invention, wherein:

FIG. 1 provides a molecular structure diagram of. two PDI molecules,Perylene-3,4,9,10-tetracarboxylic acid diimide (PTCDI) andPerylene-3,4,9,10-tetracarboxylic dianhydryde (PTCDA), used as dyemolecules in the prior art.

FIG. 2 provides a molecular structure diagram of a PDI molecule havingfunctionalization at the imide positions, in accordance of variousembodiments of the invention.

FIG. 3 provides a molecular structure diagram depicting a PDI moleculeand potential for modification of the molecule's physical properties viafunctionalization, in accordance with various embodiments of theinvention.

FIG. 4 provides a molecular structure diagrams depicting the modularnature of a perylene diimide core and potential for modification of themolecule's physical properties via core functionalization, in accordancewith the embodiments of the invention.

FIG. 5 provides a schematic diagram depicting polymerization ofphosphoramidite PDI via phosphate linkers, in accordance with variousembodiments of the invention.

FIG. 6A provides a molecular structure diagram of PDI polymers linkedvia phosphates and having functionalized termini, in accordance withvarious embodiments of the invention.

FIG. 6B provides a schematic diagram of PDI polymers having definedlength and sequence with functionalized termini, in accordance withvarious embodiments of the invention.

FIG. 7 provides a schematic diagram of a process to control PDI polymersequence, length, and termini using various PDI phosphoramidites asbuilding blocks, in accordance of various embodiments of the invention.

FIG. 8 provides a schematic diagram for molecular wire synthesis on asolid phase, in accordance with various embodiments of the invention.

FIG. 9 provides a molecular diagram of PDI polymers linked viaphosphates flanked with thiol functionalized terminus and ferrocenefunctionalized terminus, in accordance with various embodiments of theinvention.

FIG. 10 provides a molecular structure diagram of a molecular wirelinked via a phosphate backbone such that PDI monomers are ˜3.4 Å apartand interact with neighboring PDI monomers via π-π stacking, inaccordance with various embodiments of the invention.

FIG. 11 provides molecular structure diagrams of two possible π-πstacking motifs for molecular wires in the solid state, where the choiceof the imide substituents controls the π-π contact area and the color ofthe PDI crystals, in accordance with various embodiments of theinvention.

FIG. 12 provides a synthetic schematic diagram for synthesis of PDIphosphoramidites in accordance with various embodiments of theinvention.

FIG. 13 provides a schematic Illustration (top) and chemical structure(bottom) for exemplary macromolecules, which consist of tracts of one tofour PTCDIs arranged on a phospho-alkane backbone and flanked bythiol-terminated linkers and ferrocene-terminated tethers, denoted asP1, P2, P3, and P4, generated in accordance of various embodiments ofthe invention.

FIG. 14 provides an illustration of self-assembled monolayer formationfor the macromolecules generated in FIG. 13, used in accordance ofvarious embodiments of the invention.

FIG. 15 provides a synthetic schematic diagram, which can be performedin an automated oligosynthesizer, for the iterative polymerization ofthe macromolecules in FIG. 13, applied in accordance of variousembodiments of the invention.

FIG. 16 provides data plots of HPLC chromatograms for macromolecules P1,P2, P3, and P4, generated in accordance with various embodiments of theinvention.

FIG. 17 provides data plots of MALDI-TOF spectra for macromolecules P1,P2, P3, and P4, generated in accordance with various embodiments of theinvention.

FIG. 18 provides a schematic diagrams of backfilled monolayers frommacromolecules P1, P2, P3, and P4 on gold substrates, generated inaccordance with various embodiments of the invention.

FIG. 19 provides an Illustration of the promotion of a core electron tothe LUMO (left), the relaxation of the excited electron via theparticipator decay process (middle), and delocalization of the electroninto the surrounding electronic environment (right), generated inaccordance with various embodiments of the invention.

FIG. 20 provides a two-dimensional plot of the RPES intensity versus thephoton energy and electron binding energy for a monolayer from P1, wherethe red dashed line corresponds to the one-dimensional (single photonenergy) scan plot of the RPES intensity versus the electron bindingenergy for P1 plotted in FIG. 22, generated in accordance of variousembodiments of the invention.

FIGS. 21A and 21B provide molecular structure diagrams of themacromolecules P1, P2, P3, and P4 (left column); illustrations of amixed monolayer of P1, P2, P3, and P4 (middle-left column);two-dimensional plots of the signal intensity versus the photon energyand electron binding energy for a monolayer from each P1, P2, P3, and P4where the red dashed line corresponds to the one-dimensional plot of thesignal intensity versus the electron binding energy (middle-rightcolumn); and normalized resonant participator intensity profiles foreach P1, P2, P3, and P4 monolayers at an incident photon energy of 285.4eV, generated in accordance with various embodiments of the invention.

FIG. 22 provides normalized RPES intensity profiles for the P1 (red), P2(blue), P3 (green), P4 (black) monolayers, where the data is extractedfrom the two-dimensional RPES intensity plots at photon energies of285.4 eV, corresponding to the promotion of a carbon 1s core electron tothe LUMO+1, generated in accordance with various embodiments of theinvention.

FIG. 23 provides graphs of the calculated charge transfer times for P1,P2, P3, and P4 and illustrations of the corresponding macromolecules areinset, generated in accordance with various embodiments of theinvention, where the charge transfer times decrease as the length of thecolumnar molecular stack increases.

FIG. 24 provides molecular structure diagrams of the PDI subunits usedfor the molecular dynamics simulations, corresponding to macromolecules:P1, P2, P3, and P4, used in accordance with various embodiments of theinvention.

FIG. 25 provides equilibrium geometries of the PDI-containing subunitsof P1, P2, P3, and P4 obtained from molecular dynamics simulations (toprow); isosurface plots for the LUMO+1 of P1, P2, P3, and P4, where theisosurface values for all of the plots have been set to 0.01 |e|/Å³(middle row); and the theoretically determined energies of the LUMOs andHOMOs (as well as energetically-similar orbitals) for P1, P2, P3, andP4, generated in accordance with various embodiments of the currentinvention.

FIG. 26 provides schematic diagrams of a mercaptohexanol-backfilledmonolayer from P1, P2, P3 and P4 (left column); and carbon K-edge NEXAFSspectra of the P1, P2, P3, and P4 monolayers measured with the electricfield polarized parallel (red) and perpendicular (blue) to the goldsurface, where the predicted theoretical spectrum for PTCDI is shown forcomparison (dashed trace), where the substrate-relative orientationreported for the PTCDIs within the monolayer was calculated from thedifference in signal intensity (dichroism) between the red and bluetraces (right column), generated in accordance with various embodimentsof the invention.

FIG. 27A provides a schematic diagram of a mercaptohexanol-backfilledmonolayer from P0, generated in accordance with various embodiments ofthe invention.

FIG. 27B provides a representative cyclic voltammogram obtained for abackfilled monolayer from P0, generated in accordance with variousembodiments of the invention.

FIG. 27C provides a representative plot of the anodic peak current as afunction of scan rate for a backfilled monolayer from P0, generated inaccordance with various embodiments of the invention.

FIG. 27D provides a representative plot of the anodic overpotential as afunction of the natural logarithm of the scan rate for P0, where the redline corresponds to the linear fit of the region with η>100 mV, which isused to obtain the electron transfer coefficient α and the standardelectron transfer rate constant k₀, generated in accordance with variousembodiments of the invention.

FIG. 28 provides representative cyclic voltammograms obtained for abackfilled monolayer from P1, P2, P3, and P4, where the insets areschematics of the corresponding monolayers, generated in accordance withvarious embodiments of the invention.

FIG. 29 provides the dependence of the anodic peak current on the scanrate for monolayers from P1, P2, P3, and P4, where the insets areschematics of the corresponding monolayers, generated in accordance withvarious embodiments of the invention.

FIG. 30 provides cyclic voltammograms at negative potentials formercaptohexanol-backfilled monolayers from P1, P2, P3, and P4, where theinserts show schematics of the corresponding molecular wires, generatedin accordance with various embodiments of the invention.

FIG. 31 provides plots of the rate of electron transport throughexemplary wires, generated in accordance with various embodiments of theinvention, showing that they are essentially independent of theirlength.

DETAILED DESCRIPTION OF THE INVENTION

Turning now to the drawings, perylene diimide derivatives (PDI) andmethods for controlled synthesis of polymeric PDI and applicationsthereof are provided. Many embodiments are directed to compounds thatcomprise at least an electronically active base surrogate and asolubility chain. In various embodiments the base surrogate is comprisedof an electrochemically active perylene diimide molecule. In variousembodiments the solubility chain comprises a PEG functionality, such as,for example, as an imide or other substituent to provide water andorganic solvent solubility. In various embodiments, the PDI furthercomprises a phosphate functionality as an imide (e.g., phosphoramidite)or other substituent. In some such embodiments the phosphatefunctionality may be used as a chemical coupling building block topolymerize PDI molecules. In some of these embodiments, anoligonucleotide synthesizer is used for controlled polymerization. Inmany embodiments one or more aromatic core functionalizations may beincorporated into the PDI molecules to allow for tuning the molecule'selectronic properties. In various embodiments one or more functionalterminal groups may be incorporated into the PDI molecules, such as, forexample terminal thiols for attachment to gold substrates and terminalferrocenes for electrochemical measurements, among others.

Embodiments are also directed to methods of using the PDI molecules as abuilding-block to produce length and sequence controlled π-stacked PDIpolymers that may be used as organic molecular wires. In many suchembodiments the PDI phosphoramidite molecules may be incorporated intoexisting automated phosphoramidite polymer synthesizers in both waterand organic solvents to yield PDI polymers having a phosphate backbone.Further embodiments are directed to precise control of length, sequence,and terminal functionality using an automated synthesizer such thatself-assembly of the wires into variable configurations may be provided.In various embodiments molecular wires formed using such PDI moleculesshow no resistance loss with increasing length, allowing for their usein a variety of miniaturized electronics. In many such embodiments themolecular wires may be formed to be soluble in a variety of solvents,including organic solvents and water such that they may be processed andpurified using many conventional techniques, including, for example,standard DNA/biochemistry techniques (e.g., reverse-phase HPLC).

Finally, embodiments are also directed to various synthetic methods forproducing the PDI molecules and PDI polymers formed from such PDImolecules.

PDI Derivative Compounds and Polymers

Perylene-3,4,9,10-tetracarboxylic acid diimide derivatives (abbreviatedPTCDIs; also commonly called perylene diimides and abbreviated as PDIs),shown in FIG. 2, have been extensively studied as industrial colorants,both as dyes (soluble) and pigments (insoluble). This family ofmolecules possesses well-known electrochemical properties, a propensityfor adapting π-conjugated stacked columnar arrangements, and excellentstability under adverse conditions. (See, e.g., F. Würthner, Chem.Commun. 2004, 1564-1579.; and C. Huang, S. Barlow, S. R. Marder, J. Org.Chem. 2011, 76, 2386-2407; the disclosures of which are incorporatedherein by reference.) Moreover, various embodiments PDIs with differentchemical and physical properties can be obtained by modification of thesubstituents. In some of these embodiments, substituents can be insertedin the imide N, N′ positions and/or the 1, 6, 7, and/or 12 positions ofthe hydrocarbon core (the so called “bay” positions) (FIG. 2). Inparticular, embodiments are direct to influencing PDI's solubility andpropensity for aggregation via functionalization at imide positions(including with two different substituents) and other embodimentsinvolve tuning HOMO-LUMO levels via substitutions at the bay positions.These advantageous chemical and physical properties as well as highmolecular modularity make PDI derivatives attractive synthetic targetsfor electron charge transport materials.

As shown in FIG. 2, the PDI derivatives in accordance with embodimentsat least incorporate substituents along the base perylene and/or at oneor both of the imide functionalities. Some of these embodiments aredirected to the incorporation of a solubility tail that keeps the PDIsfrom aggregating or precipitating out of organic solvents and/or water.In some embodiments, PDI molecules are functionalized with alkyl or arylsubstituents on the imides. In accordance of several other embodiments,a PDI derivative is functionalized on an imide with hydrophilicmoieties, which may include a polyethylene glycol (PEG) solubility tail,Newkome-type carboxylates, phosphate surfactants, polyglycerol dendrons,and clycodextrin. In many such embodiments, one imide is functionalizedwith one moiety and the other imide is functionalized with another,resulting in an unsymmetrical PDI molecule (See FIG. 3). In many suchembodiments, an unsymmetrical PDI molecule has a phosphate group (e.g.,phosphoramidite) covalently linked to a first imide and a secondfunctionality (e.g., PEG polymer) on a second imide. PEGfunctionalization, however, in accordance with several embodiments, maybe performed anywhere along the perylene molecules including one of theimide moieties, or bay positions (See FIG. 3). Furthermore, inaccordance with a number of embodiments, the number and/or length of PEGfunctionalities attached to a PDI molecule can vary, depending on theneed and or function. For example, longer PEG chains may be preferred oneither imide moiety as a longer PEG functionality extending from the bayposition may interfere with base stacking between PDI molecules. Inseveral embodiments, a PEG moiety may be attached to the PDI in onesynthetic step.

PEG is an inexpensive polymer widely adapted in applications rangingfrom industrial manufacturing to medicine. One distinctive property ofthese organic neutral compounds is their good solubility in both waterand many common organic solvents, such as methanol, ethanol,acetonitrile, benzene, and dichloromethane. PEG also allows for thetuning of the solubility of the molecules as longer (more repeat unitsof ethylene glycol) PEG chains may impart stronger hydrophilicity.Functionalization with PEG, in accordance with embodiments cansignificantly expand the scope of PDIs' applications.

In many embodiments, the core perylene of the PDI derivatives may befurther substituted along its body (e.g., at the “bay” positionsdisposed at positions 1 & 12 and 6 & 7; See FIG. 2) to further increasesolubility and/or to allow for the configuration of highly modular PDIderivative compounds with easily tunable physical and chemicalproperties (See FIG. 3) (See C. Huang, S. Barlow, and S. R. Marder,2011, cited supra). In particular, as shown in the figure, PDIderivatives with symmetrical or unsymmetrical imide substituents may beproduced that allow for the further chemical modification of theperylene core. As shown in FIG. 3, the bay positions can be modifiedwith halogens (e.g., F, Cl, Br), cyanides, alkyl groups, aryl groups,aryloxy groups, and PEG polymers. For example, the introduction of aryl,aryloxy, or bromo groups can influence steric interactions between thePDI molecules, disrupting π-π stacking, which can improve solubility. Itshould be understood that any substituents that may disrupt the π-πstacking, such as bulky groups, would be expected to increasesolubility. On the other hand, severe disruption of π-π stacking mayinterfere with the electron transfer properties of the molecules, andthus proper balance between solubility and electrochemical propertiesneeds to be considered.

In various embodiments, dibrominated and tetrachlorinated soluble PDIsmay be used as intermediates for the synthesis of a wide variety of di-and tetra-substituted derivatives (e.g., cyano, fluoride, phenoxy, andamino groups) via nucleophilic substitution reactions, as is describedin greater detail in the Exemplary Embodiments (See also FIG. 4).Nucleophilic substitutions of bromo bay substituents can be performedvia of known protocols and often have high yields. Fluoride-, cyanide-,phenol, and amine-based nucleophiles can be incorporated to createvariety of PDI molecules having unique electronic properties due to thesignificant electronic coupling between the substituents and PDI cores.

A variety of diaryl- and tetraaryl-functionalized PDIs may also beformed via transition-metal catalyzed C—C couplings, such as Suzuki,Stille, and Sonogashira reactions, yielding aryl, heteroaryl, and akynylfunctionalized PDIs couplings at the aryl halide positions (FIG. 4).Such processes allow for facile substitution of the perylene core with awide range of electron-withdrawing groups and electron-donating groups,allowing for modulation of the electronic properties of our PDI buildingblocks. (For further detailed information see, e.g., Wagenknecht, H-A.Curr. Org. Chem. 2004, 8, 251-266; Würthner, F. Chem. Commun. 2004,1564-1579; Jung, B. J.; et al. Chem. Mater. 2011, 23, 568-582; andHuang, C.; Barlow, S.; Marder, S. R. J. Org. Chem., 2011, 76, 2386-2407,the disclosures of which are incorporated herein by reference.)

Although modifications of bay positions (i.e., position 1, 6, 7, and 12)are described in detail, it should be noted that the other positions ofthe perylene core (e.g., 2, 5, 8, 11) can also be substituted. Forexample, direct arylation or alkylation of positions 2, 5, 8, and 11have been reported (See, C. Huang, S. Barlow, and S. R. Marder, 2011,cited supra). Substitutions at these positions may yield desiredsolubility without great distortion of π-π stacking and thus may benefitelectronic coupling between molecules.

Numerous embodiments are also directed to soluble, multifunctional PDIderivatives for use in a wide-variety of applications, including asbuilding-blocks for polymers that can be used as molecular wires. Insuch embodiments the PDI serves as a central electroactive component. Tobuild polymeric PDI molecules, various embodiments of PDI molecules mayinclude a phosphate functionality (e.g., phosphoramidite) extended fromat least one imide of the perylene core (See FIG. 3). Accordingly,incorporation of a phosphoramidite (or similar) group allows for PDIcompounds be used as nucleoside-phosphoramidite-like base-surrogates tobe polymerized along a phosphate backbone by various nucleosidepolymerization protocols, which may include the use of anoligosynthesizer. FIG. 5 displays a typical polymerization scheme withthe use of phosphoramidite PDI derivatives. It should be noted that forthe sake of simplicity, FIG. 5 depicts polymerization of phosphoramiditePDI derivatives having the perylene core without any additionalfunctionalization, but the PDI derivative can be modified as describedin previous paragraphs, including functionalization of an amide and/orbay positions. Accordingly, polymerization results in variousembodiments of PDI polymers having various PDI derivative units (FIGS.6A and 6B). In several embodiments, a PDI derivative unit has aphosphoramidite covalently linked to a first imide, such that thephosphoramidite functions to iteratively link the PDI derivative to aPDI polymer. Some of such embodiments will also have a functionality(e.g., PEG polymer) extending from a second imide. In many moreembodiments, PDI polymers, regardless of polymerization method, arecapable of base stacking via the aromatic π bonds, creating stable longpolymers with high electron transfer capabilities.

Automated nucleic acid synthesizing protocols and equipment are designedto chemically couple nucleoside phosphoramidites to synthesize asequence of nucleic acid polymers in vitro. Nucleoside phosphoramidites,which may feature a natural or designer oligonucleotide base, can beused to build natural and artificial oligonucleotides. Accordingly,oligonucleotide polymerization can iteratively combine providedphosphoramidites in any user-designed order, allowing for constructionof known natural oligonucleotide sequences or user-defined artificialvariants—all with exquisite precision and in a relatively fast,inexpensive manner. It has now been determined that functionalized PDIphosphoramidites (as shown in FIGS. 3 and 4) are compatible witholigonucleotide syntheses. Accordingly many embodiments are directed tomethods of forming PDI phosphoramidites using automated synthesizers,and allows for polymerization of PDI derivatives in a controlled manner,such that the length, sequence and terminal functionality can bedesigned (See FIGS. 6A, 6B, and 7). Determination of length, sequence,and terminal functionality may be dependent on the intended use the PDIpolymer. For example, molecular wires may be designed to have a preciselength necessary for an application (e.g., nanowires).

In a number of embodiments, the PDI polymer sequence can be controlledduring the polymerization process, such as when synthesized using anautomated oligonucleotide synthesizer (FIG. 7). Accordingly, anindividual can design the PDI to a precise sequence and length, buildingPDI polymers by iterative linking of PDI phosphoramidites. PDI polymerscan be assembled using various nucleic acid synthetic polymerizationtechniques, which are well known in the field (See FIG. 8). Typically,monomers are iteratively added to a polymer on a solid support by aprotective process to ensure a single monomer is added in each step.Because an individual can control which monomers are added at eachiteration and the number of iterations to be performed, one can designand synthesize a PDI polymer with ultimate precision. In addition,oligosynthesizers can be programmed to perform the iterativepolymerization in an automated fashion. After completion ofpolymerization, a PDI polymer may be cleaved from the solid support andpurified by any known methods in field, yielding a designed polymer(FIG. 8).

The use of iterative PDI polymerization techniques can yield a number ofdesigner polymers. Accordingly, various embodiments are directed tophosphate-linked polymers having a single repeat PDI derivative monomer.In other embodiments, at least two different PDI derivativesincorporated into the polymer. Further embodiments are directed todesigner sequences of multiple PDI derivatives, which may have desiredchemical or electrical properties for a particular application orfunctionality. It should be noted that although FIG. 7 only depictsthree PDI derivatives, but it should be understood that any number ofPDI derivatives can be used, depending on the use and application of thePDI polymer.

More embodiments are directed to controlling the length of a PDI polymer(FIG. 7). In a number of embodiments, the PDI polymer is two, three, orfour monomers long. In some more embodiments, the polymer length is anynumber chosen by the user capable of being synthesized. Currentprotocols used in the field can synthesize nucleic acid polymers strandsof a couple hundred bases, and compiled polymers up to a couple thousandbases with sequence and length precision accuracy. Likely,polynucleotide synthesis will continue to improve over time, and thuscan be incorporated into embodiments of PDI-polymerization protocolsdefined within, enhancing the ability to build longer phosphate-linkedPDI polymers. Accordingly, embodiments are directed to PDI polymers witha precise length (i.e., precise number of monomers). In some of theseembodiments, a PDI polymer strand is at least 20 monomers; in others, atleast 100 monomers; and in even more, at least 200 monomers.

In various embodiments, PDI polymers may be end-capped with a variety offunctional groups to be used in a variety of applications. In someembodiments, for example, an electroactive ferrocene moiety may bedisposed at one terminus of strands of PDI molecules. Alternatively orin addition, a thiol may be disposed at a terminus during the programmedsynthesis process. Exemplary embodiments of such terminal substitutionsare shown in FIG. 8. In some such embodiments, the sulfur (e.g., thiol)moieties can be next used to, for example, anchor PDI polymers tovarious surfaces (e.g., gold). Other embodiments are directed to amino,hydroxyl, and carbonyl groups used as polymer termini. In several suchembodiments, a terminal group functions to attach the polymer to variousconnectors. Embodiments of PDI polymers with ferrocene terminal functionallow for electrochemical probing of the polymer itself.

Further embodiments are directed to synthesis of multiple PDI polymersat the same time, with the same precision and control for each polymer.Accordingly, embodiments are directed to a collection of PDI polymersthat are monodisperse, each having the same sequence, length, termini.Although polymerization results in various yields of a designed polymer,the desired polymer may be purified to high percent yields by a numberof known protocols (e.g., HPLC). In more embodiments, the collection ofPDI polymers are stored in a suitable solution or lyophilized into adried salt.

Molecular Nanowires

Molecular electronic devices have the potential to redefine integratedcircuit technologies and revolutionize modern computing. (See, e.g., K.Moth-Poulsen, Handbook of Single-Molecule Electronics, Pan StanfordPublishing, Boca Raton, 2015; and D. M. Guldi, H. Nishihara, L.Venkataraman, Chem. Soc. Rev. 2015, 44, 842-844, the disclosures ofwhich are incorporated herein by reference.) Consequently, much efforthas focused on the discovery and study of nearly “lossless” molecularwires or molecular chains that efficiently transport charge. (See, e.g.,G. Sedghi, et al., Nat. Nanotech. 2011, 6, 517-523; G. Sedghi, et al.,Adv. Mater. 2012, 24, 653-657; W. B. Davis, et al., Nature 1998, 396,60-63; H. D. Sikes, et al., Science 2001, 291, 1519-1523; J. D. Slinker,et al., Nat. Chem. 2011, 3, 228-233; and L. Xiang, et al., Nat. Chem.2015, 11, 221-226 the disclosures of which are incorporated herein byreference.) However, for many of the reported molecular wires, thecharge transport rate or conductivity drops off precipitously withlength in the tunneling regime (typically <˜5 nm). Furthermore,artificial molecular wires are often difficult to synthesize, whilenatural molecular wires can exhibit poor stability under electricalinterrogation. (See, e.g., N. J. Tao, Nat. Nanotech. 2006, 1, 173-181;S. V. Aradhya, L. Venkataraman, Nature Nanotech. 2013, 8, 399-410; Jia,B. Ma, N. Xin, X. Guo, Acc. Chem. Res. 2015, 48, 2565-2575; H. Song, M.A. Reed, T. Lee, Adv. Mater. 2011, 23, 1583-1608; M. D. Newton, J. F.Smalley, Phys. Chem. Chem. Phys. 2007, 9, 555-572; A. L. Eckermann, etal., Coord. Chem. Rev. 2010, 254, 1769-1802; E. A. Weiss, et al., Top.Curr. Chem. 2005, 257, 103-133; C. Schubert, et al., Chem. Soc. Rev.2015, 44, 988-998; S. S. Skourtis, Biopolymers, 2013, 100, 82-92; and R.J. Nichols, S. J. Higgins, Annu. Rev. Anal. Chem. 2015, 8, 389-417, thedisclosures of which are incorporated herein by reference.)Consequently, given the continued demand for integrated circuitminiaturization, the development of high-performance molecular wiresremains of paramount importance for next generation electronics. (See,e.g., M. M. Waldrop, Nature 2016, 530, 144-147, the disclosure of whichis incorporated herein by reference.)

The availability of methods for precise assembly of molecular wires iscrucial for obtaining rationally designed materials with predictable andtunable electronic properties, especially in the sub-10 nm lengthoperational regime approached by some current transistors andbioelectronics devices. Many types of nanowires have been proposed andeven fabricated, including perylene-based nanowires, however, mostproduction efforts rely on bulk assembly techniques or poorly controlledpolymerizations. Although these techniques can furnish long nanowiresout of the available building blocks, the precise control over thenanowire length, sequence, or other key geometric parameters remainelusive.

Accordingly, embodiments are provided for the preparation andcharacterization of molecular wires from the PDI derivatives set forthherein. In many such embodiments, phosphoramidite functionalized PDIderivatives according to embodiments are used as molecular buildingblocks for the assembly of molecular wires, where the perylene core isthe basis of the wires' self-arrangement/π-stacking and resultingelectronic properties and phosphoramidite functionality ensurescompatibility with oligonucleotide synthesis protocols and equipment topolymerize the nanowire via a phosphate backbone. In furtherembodiments, phosphoramidite functionalized PDI derivatives also containPEG adduct to ensure solubility in either water or organic solvents. Assuch, the approach according to various embodiments employs entrenchednucleic acid polymer synthesis and self-assembly techniques to producewell defined arrays of columnar stacks of organic semiconductor buildingblocks at solid substrates, as shown schematically in FIG. 8. Such anassembly method affords exquisitely precise phosphate-linked nanowirefabrication, including incorporation of chain terminal groups of choice,which is difficult to achieve within any other traditional synthesis andself-assembly contexts.

Using such embodiments of molecular wire generation, it is possible to“lock in” the same π-π stacking interactions similar to those found inPDI crystals and the phosphate backbone will ensure a distance of ˜3.4 Åbetween neighboring PDI monomers, similar to the distance betweennucleotides in a nucleic acid polymer (See FIG. 10). Furthermore, byvarying the alkyl substituents at the free imide position of the PDImonomers, it is possible to control the structural interaction ofadjacent building blocks (See FIG. 10; R functionality). Embodiments ofnanowires in accordance with embodiments are thus capable of using aphosphate backbone to enforce the desirable packing found in PDIcrystals (See FIG. 11). In such crystals, the PDI monomers form columnarstructures with intermolecular PDI distances between 3.34 and 3.55 Å,and the transverse and longitudinal offset of adjacent PDI monomersbeing controlled by steric interactions between the PDI imidesubstituents. Accordingly, in many embodiments the nanowires may becharacterized as one-dimensional crystalline-like columns locked into aπ-stacking conformation.

The anionic phosphate backbone according to a number of embodimentsfacilitates a high throughput systematic structural characterization ofPDI nanowires from monomers with different imide substituents. Usingcommercial nucleic acid synthesis protocols, it is then possible to growPDI nanowires having crystalline-like columns. In some embodiments therelative orientation of the PDI monomers may be determined viacrystallochromy (color changes resulting from the interaction of theπ-conjugated systems in a solid-state lattice). (See, e.g., Kazmaier, P.M.; Hoffman, R. J. Am. Chem. Soc. 1994, 116, 9684-9691; and Herbst, W.;Hunger, K. Industrial Organic Pigments: Production, Properties,Applications, 2nd ed. Wiley: Weinheim, 1997, the disclosure of which isincorporated herein by reference.) Indeed, the bathochromic shift andband broadening found for the absorbance of PDI dyes in the solid statecan be quantitatively and empirically related to the π-π contact areabetween the stacked chromophores; red coloration indicates a smallcontact area and black coloration indicates a large contact area (see,e.g., FIG. 11). Using crystallochromic studies it is possible to rapidlyscreen for nanowires where neighboring PDI monomers that have a minimaloffset and assume a cofacial configuration; this type of stacking favorsexcellent charge transport properties in organic materials (as discussedin the Exemplary Embodiments).

Using the techniques, according to embodiments, it is possible to formorganic nanowires with varying lengths and compositions by incorporatingdifferent numbers of distinct PDI building blocks. In many embodiments,automated oligosynthesis may be used to form organic nanowires withcontrolled lengths (e.g., between ˜10 nm and ˜50 nm; ˜30 to ˜150 monomerunits) to a precision that is incapable of being obtained using standardorganic nanowire engineering. It is also possible to precisely controlthe placement and environment of every single PDI building block bymodulating the “sequence context” of the nanowire. For example, it ispossible to synthesize nanowires where a short tract of one type of PDIis embedded between two longer tracts of another type of PDI. Inaddition, it is possible to synthesize nanowires where the two types ofPDI monomers are intermixed (See FIG. 7). Using such techniques it ispossible to rationally tune both the local and global electronicproperties of the organic nanowires, which will be crucial forsubsequent electrical and electrochemical studies.

Accordingly, anionic phosphate backbones according to embodiments allowfor the processing of the PDI polymer nanowires under aqueous (orpartially aqueous) conditions. It is therefore possible to purify thePDI polymer nanowires via high performance liquid chromatography (HPLC),a technique that typically yields DNA products with >99.9% purity and apolydispersity of 1.0. This ease of purification allows for theproduction of the first ex situ synthesis of long, well-defined, andmonodisperse organic nanowires with lengths >˜40 nm. Embodiments of thecompounds and synthetic methods furnish water soluble, low-resistance,organic nanowires for the next generation of high performanceminiaturized electronics (OLEDs, OPVs, OFETs, etc.). Moreover, thedescribed nanowire assembly method, which is a standard automatedoligonucleotide chemistry technique, uses highly modular, photo- andelectroactive building blocks, and allows for precise control of chainlength, composition, and user-specified terminal functionality.Furthermore, the assembly products' good solubility in a variety ofsolvents, including water, enables facile processing with establishedindustrial techniques, including DNA purification and depositiontechniques. In addition, the accessible modularity of the buildingblocks ensures that the physical properties of the whole system can betuned for an array of applications. Finally, the easy installation ofterminal substituents warrants the materials' convenient post-syntheticassembly into devices.

Embodiments of nanowires having various derivatives of PDI molecules canbe utilized in a number of electronic devices and applications,including organic field-effect transistors (OFETs), electrophotographicdevices, and organic photovoltaic cells (OPVs). PDIs are good moleculesfor use as the attractive layer of n-channel field effect transistorsdue to their relatively exergonic electron affinities. In a number ofembodiments, nanowires have facile electron injection and low thresholdvoltages. More embodiments are directed to nanowires with highcharge-carrier mobilities.

The use of molecular organic wires may have several benefits, includinglossless charge transport. In many embodiments, electrons aretransported through the macromolecules' tethers and linkers via arate-limiting and loosely non-resonant tunneling mechanism. Furtherembodiments are directed to electrons that are transported through themacromolecules' PDI-based substructures via a rapid and nearly losslessresonant tunneling mechanism. The combination of these two mechanismsresults in essentially length-independent charge transport forembodiments of the constructs, in accordance with several embodiments.

EXEMPLARY EMBODIMENTS

Many embodiments are also directed to methods of synthesizing PDImolecules and derivatives, PDI polymers, and molecular nanowirestherefrom. Although specific reagents and methodologies are described inthe embodiments that follow, it will be understood that these proceduresare included for exemplary purposes and the scope of the syntheticmethods of synthesis are not intended to be limited thereto.

Example 1: Synthesis of PDI Derivatives

Materials:

All general chemical reagents were purchased from Acros Organics,Sigma-Aldrich, or Combi-Blocks. The solvents were obtained from FisherScientific and used as received, unless otherwise noted. Flashchromatography was performed using SiliCycle Silica Flash F60 silicagel. The specific chemical reagents and commercial phosphoramiditesrequired for the automated synthesis steps were purchased from eitherGlen Research, Inc. or FIVEphoton Biochemicals, Inc. and used asreceived.

General Procedures for Characterization of the Small MoleculePrecursors:

All intermediates and products for the phosphoramidite synthesis werecharacterized with nuclear magnetic resonance (NMR) spectroscopy andmass spectrometry. The electrospray mass spectrometry (ESI MS) data wereobtained at the University of California, Irvine Mass SpectrometryFacility on a Waters LCT Premier Electrospray time-of-flight instrument.The ¹H NMR spectra were obtained on either a Bruker DRX500 or anAVANCE600 instrument. The ¹³C NMR spectra were obtained on a BrukerDRX500 outfitted with a CryoProbe (Bruker TCI 500 MHz, 5 mm diametertubes). The ³¹P NMR spectra were acquired on a Bruker AVANCE600instrument. Chemical shifts were reported in ppm for ¹H, ¹³C, ¹⁹F, and³¹P NMR. The chemical shifts for the NMR data were referenced asfollows: for samples in CDCl₃, the ¹H NMR was referenced totetramethylsilane (TMS) at 0.00, and the ¹³C NMR was referenced to CDCl₃at 77.23; for samples in CD₃OD, the ¹³C NMR was referenced to thesolvent peak at 49.00; for samples in CD₂Cl₂, the ¹H NMR was referencedto the solvent peak at 5.32, and the ¹³C NMR was referenced to thesolvent peak at 54.00. The chemical shifts for the ³¹P NMR spectra werecorrected and referenced by using ¹H NMR according to the 2008 IUPACrecommendations. The data are labeled as follows: chemical shift,multiplicity (s=singlet, d=doublet, t=triplet, q=quartet, quint=quintet,m=multiplet, br s=broad singlet), the coupling constants (in Hertz), andthe integration value.

Phosphoramidite Synthetic Protocols:

The following exemplary synthetic protocols will be described inrelation to FIG. 12.

(S)-3-trifluoroacetamido-1,2-propanediol (S1)

Product S1 in FIG. 12 was synthesized according to establishedliterature protocols. (See, e.g., A. V. Azhayev, M. L. Antopolsky,Tetrahedron 2001, 57, 4977-4986; and C. Wagner, H.-A. Wagenknecht, Org.Lett. 2006, 8, 4191-4194, the disclosures of which are incorporatedherein by reference.)

(S)-3-trifluoroacetamido-1-(4,4′-dimethoxytriphenylmethyl)-2-propanediol

Product S2 in FIG. 12 was synthesized according to establishedliterature protocols. (See, e.g., A. V. Azhayev, M. L. Antopolsky,Tetrahedron 2001, 57, 4977-4986; and C. Wagner, H.-A. Wagenknecht, Org.Left. 2006, 8, 4191-4194, the disclosures of which are incorporatedherein by reference.)

(S)-3-amino-1-(4,4′-dimethoxytriphenylmethyl)-2-propanediol (S3)

Product S3 in FIG. 12 was synthesized according to establishedliterature protocols. (See, e.g., A. V. Azhayev, M. L. Antopolsky,Tetrahedron 2001, 57, 4977-4986; and C. Wagner, H.-A. Wagenknecht, Org.Lett. 2006, 8, 4191-4194, the disclosures of which are incorporatedherein by reference.)

Precursor for the Perylene Diimide Phosphoramidite (S4)

Product S4 in FIG. 12 was synthesized according to a procedure adoptedfrom the literature. (See, e.g., C. H. Wohlgamuth, et al., J. Phys.Chem. C 2014, 118, 29084-29090; C. B. Markegard, et al., J. Phys. Chem.B 2015, 119, 11459-11465; and C. Wagner, H.-A. Wagenknecht, Org. Lett.2006, 8, 4191-4194, the disclosures of which are incorporated herein byreference.) First, 0.741 g (1.91 mmol, 1.0 equiv) of3,4,9,10-perylenetetracarboxylic dianhydride and 0.713 g (3.89 mmol, 2.0equiv) of anhydrous Zn(OAc)₂ were combined in an oven-dried round bottomflask. Anhydrous pyridine (17 mL) was then added via syringe, and theflask was fitted with a water-cooled condenser. The mixture was heatedto reflux, and after 1.5 h, a solution of2,5,8,11,14,17-hexaoxanonadecan-19-amine (0.568 g, 1.92 mmol, 1.0 equiv)in 10 mL of anhydrous pyridine and a solution of(S)-3-amino-1-(4,4′-dimethoxytriphenylmethyl)-2-propanediol (0.755 g,1.92 mmol, 1.0 equiv) in 10 mL anhydrous pyridine were successivelyadded to the flask. The resulting mixture was stirred rapidly andmaintained at reflux for ˜22 hours under argon. The reaction wassubsequently allowed to cool to room temperature, concentrated to ˜ 1/10of the original volume by rotary evaporation, diluted in CH₂Cl₂ (150mL), and poured into a separatory funnel. The crude mixture wasextracted with aqueous KOH (1 M, 3×150 mL), dried for 5 min overanhydrous Na₂SO₄, and filtered. Next, silica gel (8 mL) was added to thecrude product solution, and the solvent was removed by rotaryevaporation. The resulting material was loaded in its dry state onto asilica gel column (245 mL silica gel, 5.5 cm O.D. column), and theproducts were eluted with CH₂Cl₂:methanol (from 99:1 to 85:15 in 3000 mLtotal eluent). The procedure yielded 820 mg (41%) of product S4 as adark red solid.

Perylene Diimide Phosphoramidite (S5)

Product S5 in FIG. 12 was synthesized according to a procedure adoptedfrom the literature. (See, e.g., C. H. Wohlgamuth, et al., J. Phys.Chem. C 2014, 118, 29084-29090; C. B. Markegard, et al., J. Phys. Chem.B 2015, 119, 11459-11465; and C. Wagner, H.-A. Wagenknecht, Org. Lett.2006, 8, 4191-4194, the disclosures of which are incorporated herein byreference.) First, 0.4 g (0.383 mmol, 1.0 equiv) of the perylene diimideprecursor (S4), dichloromethane (4 mL), and distilled triethylamine(0.27 mL, 1.91 mmol, 5 equiv) were added to a scintillation vial undernitrogen. Once S4 had dissolved to produce an opaque red solution, 0.085mL of N,N-diisopropylamino-β-cyanoethyl chlorophosphoramidite (0.381mmol, 0.99 equiv) was added via syringe. After stirring for 3 hours, thesolution was poured into a separatory funnel, rinsed and diluted withsparged CH₂Cl₂ (3×4 mL), and extracted with sparged aqueous NaHCO₃(saturated, 3×10 mL). The organic phase was dried for 1 min over Na₂SO₄,filtered, and concentrated by rotary evaporation/vacuum drying to yield438 mg (92%) of product S5 as a dark red solid. This product contained amixture of diastereomers.

Example 2: Synthesis and Characterization of Molecular Wires

Macromolecules (e.g., P1, P2, P3, and P4 from FIG. 13) were synthesizedon solid support (as shown in FIG. 14) according to standard commercialprotocols recommended by Glen Research, Inc. for an Applied Biosystems(ABI) 394 DNA synthesizer (See, e.g., FIG. 15). The synthesis cycle wasmodified to omit the capping step and to use extended coupling times forthe incorporation of both the thiol modifier C6 S—S phosphoramidites andperylene diimide phosphoramidites, as previously described. (See, e.g.,C. H. Wohlgamuth, et al. J. Phys. Chem. C 2014, 118, 29084-29090; and C.B. Markegard, et al., J. Phys. Chem. B 2015, 119, 11459-11465, thedisclosures of which are incorporated herein by reference.) Aftersynthesis, the macromolecules were cleaved from the support by treatmentwith aqueous ammonium hydroxide and purified via reverse phase highperformance liquid chromatography (HPLC) on an Agilent 1260 Infinitysystem, equipped with an Infinity Series diode array detector.Macromolecules P1, P2, P3, and P4 were eluted with a gradient evolvedfrom 40% solvent A and 60% solvent B to 0% solvent A and 100% solvent Bover 120 min at a flow rate of 1 mL/min (solvent A, 50 mM ammoniumacetate, pH=6 buffer; solvent B, methanol) on Agilent ZORBAX Stable BondPhenyl columns (see, e.g., FIG. 16 for representative chromatograms).The MALDI-TOF mass spectra of the macromolecules were obtained on anApplied Biosystems Sciex MALDI-TOF/TOF 5800 series mass spectrometer inreflectron negative mode, using a 349 nm Nd:YAG laser as theillumination source (see, e.g., FIG. 17 for representative spectra).

Self-Assembly of the Mixed Monolayers.

Monolayers from macromolecules P1, P2, P3, and P4 were formed on 80 nmgold films evaporated onto Si substrates (International Wafer Service,Inc.). Prior to monolayer assembly, the films were cleaned withsequential sonication in acetone, isopropanol, and methanol. Themacromolecules were self-assembled from methanol over a period of 16 to24 hours. The monolayers were in turn backfilled with 1 mMmercaptohexanol, displacing non-specifically bound macromolecules. ThePTCDI multilayers were prepared by dropcasting PTCDI onto gold-coated Sisubstrates. The monolayers and multilayers were used for spectroscopicmeasurements immediately after preparation.

X-ray Spectroscopy of the PTCDI-Based Monolayers and Multilayers.

X-ray spectroscopy experiments were performed at the ALOISA beamline ofthe Elettra Synchrotron in Trieste, Italy in an ultra-high vacuum endstation. During the experiments, the sample temperature was maintainedat −60° C., and the measurement and sample preparation chamber pressureswere maintained at 10⁻¹¹ mbar and 10-10 mbar, respectively. Thebackfilled monolayers and multilayers were characterized using resonantphotoemission spectroscopy (RPES). The RPES experiments were performedby taking XPS scans (0 to 50 eV binding energy, E_(p)=40 eV) at a seriesof incident photon energies across the entire range of the carbon K-edgeionization threshold (278 eV to 310 eV). The surface was oriented at agrazing-incidence angle of 4° and in P-polarization, with ahemispherical electron analyzer positioned at 55° from the surfacenormal at an acceptance angle of 2°. The data obtained for all of themeasurements was analyzed and processed according to establishedliterature procedures. (See, e.g., P. A. Brühwiler, et al., Rev. Mod.Phys., 2002, 74, 703; O. Björneholm, et al., □Phys. Rev. Lett., 1992,68, 1892; M. Ohno, Phys. Rev. B, 1994, 50, 2566; O. Karis, et al., Phys.Rev. Lett., 1996, 76, 1380; P. Vilmercati, et al., Surf. Sci., 2009,603, 1542; L. Cao, et al., Adv. Mater., 2014, 26, 7880; A. Batra, etal., Nat. Comm., 2012, 3, 1038; T. Schiros, et al., Adv. Energy Mater.,2013, 3, 894; L. Cao, et al., J. Phys. Chem. C, 2014, 118, 4160; L. Cao,et al., J. Chem. Phys., 2011, 135, 174701; and G. Fratesi et al., Phys.Chem. Chem. Phys., 2014, 16, 14834, the disclosures of which areincorporated herein by reference.)

Example 3: Charge Transfer Dynamics Studies

Synchrotron-based spectroscopy was used to quantify excited-state chargetransfer dynamics at model organic-inorganic interfaces. A series ofwell-defined, backfilled monolayers via self-assembly of distinctphosphate-linked macromolecules from perylene-3,4,9,10-tetracarboxylicdiimide building blocks. Next the monolayers were probed with resonantphotoemission spectroscopy (RPES) and use the core-hole clock (CHC)method to quantify the rate of excited-state charge transfer, i.e.electron delocalization, from the molecules to their surroundings. Anunexpected length-independent trend for the charge transfer times wasobserved, which may be explained with density functional theorycalculations.

First, model organic-inorganic interfaces illustrated in FIG. 18,incorporating embodiments of the PDI compounds because of theirpromising electronic properties and self-assembly characteristics, wereprepared. Next, automated oligonucleotide chemistry was used tosynthesize and characterize a series of polymer macromolecules (denotedas P1, P2, P3, and P4), which consisted of one to four of the PDImoieties arranged on an alkane phosphodiester backbone, as well asalkanethiol and ferrocene functionalities at opposing. In turn, standardDNA self-assembly strategies were used to form backfilled monolayers ongold substrates from embodiments of the thiol-modified macromolecules.Importantly, the monolayers featured relatively dilute surface coveragesof ˜20 to ˜25 pmol/cm², with the constituent PDI-based substructuresadopting an upright orientation at an angle of ˜60° relative to thesubstrate surface. Such precisely-defined organic-inorganic interfacesenables the systematic investigation and direct comparison ofexcited-state charge transport phenomena within a uniform context.

A study was undertaken on the excited-state charge transfer dynamics atthe model organic-inorganic interfaces with synchrotron-based resonantphotoemission spectroscopy (RPES), a surface-sensitive technique thatprovides information on electron delocalization with atomic-levelchemical resolution and femtosecond (or even sub-femtosecond) temporalresolution. In a typical incarnation of this technique, X-ray radiationpromotes an atomically localized core electron to an unoccupied orbital(e.g., the LUMO), producing an excited electron and a core-hole (FIG.19, left). Subsequently, the excited electron may relax via multipleprocesses, including an autoionization process known as participatordecay (FIG. 19, middle) and general charge transfer into thesurroundings (FIG. 19, right). For the participator decay process, theexcited electron participates in the core-hole decay and anotherelectron from an occupied orbital (e.g. the HOMO) is ejected (FIG. 19,middle), yielding a resonantly enhanced peak that is degenerate with thedirect photoemission process. For the charge transfer process, thecore-excited electron delocalizes from the macromolecules' LUMO into thesubstrate or general surrounding electronic environment (FIG. 19,right), quenching the intensity of the participator decay signal. As aspecific example, FIG. 20 shows a two-dimensional plot of the normalizedresonant photoemission intensity versus the photon energy and electronbinding energy for a monolayer from P1, with the non-resonant backgroundsubtracted. The plot displays a prominent peak for photon energiesbetween 284 eV and 286 eV and binding energies between 2.2 eV to 5 eV,along with a broad Auger decay hump at higher binding energies (FIG.20). Based on the NEXAFS and RPES spectra previously reported for PDIs,we attributed the prominent peak to the resonantly enhanced HOMOresulting from participator decay of a carbon 1s core electron that hadbeen promoted to the LUMO and/or LUMO+1. Importantly, an analysis of thespectra obtained for monolayers from P2, P3, and P4 yielded very similarcharacteristic signals, which were assigned in analogous fashion (FIG.21). These findings demonstrated that the RPES spectra of monolayersfrom P1, P2, P3, and P4 generally resembled both one another and thespectra previously reported for PDI-based materials.

Next, the core-hole clock method was used to evaluate the intrinsicexcited-state charge transfer times from the RPES plots obtained forbackfilled monolayers from P1, P2, P3, and P4. FIG. 22 showsone-dimensional plots of the RPES intensity versus the electron bindingenergy for these monolayers at a photon excitation energy of 285.4 eV(specifically corresponding to the promotion of a carbon 1s coreelectron to the LUMO+1). By evaluating the quenching of the prominentparticipator decay peaks at 3.4 eV, it was possible to extract theexcited electron delocalization rates and hence the associated chargetransfer times of 11.5±1.5 fs, 8.4±1.0 fs, 5.2±0.5 fs, and 5.7±0.6 fsfor backfilled monolayers from P1, P2, P3, and P4, respectively (SeeFIG. 23).

The charge transfer dissociation times TCT for macromolecules P1, P2,P3, and P4 were calculated according to established literatureprotocols. First, the photoemission intensity at energies below the Cls-LUMO excitation (the pre-edge) was subtracted from each of thecorresponding 2D RPES plots. Then, line profiles at photon energies of285.4 eV were extracted from the 2D spectra, yielding corresponding 1Dspectra and facilitating direct comparisons between the resonant spectraat the C1s→LUMO+1 transition for monolayers from P1, P2, P3, and P4.Next, the inelastic electron emission was modeled as a Shirley-typebackground and subtracted from each of the 1D spectra. Subsequently, theresonant spectra for the monolayers were normalized to the overall Augerintensity, enabling an analysis of the HOMO participator decay intensityquenching (See FIG. 21). The participator intensities (Ip) of thevalence band resonances for P1, P2, P3, and P4 were then evaluated byintegrating the peaks at a binding energy of 3.4 eV (i.e. the positionof the HOMO peak), and the corresponding charge delocalization timeswere calculated by following the core-hole-clock approach via theequation:

$\begin{matrix}{\tau_{CT} = {\tau_{CH}\frac{I_{coupled}}{I_{isolated} - I_{coupled}}}} & \left( {{EQ}.\mspace{14mu} 1} \right)\end{matrix}$where τ_(CH)=6 fs is the reported core-hole lifetime for carbon 1s,I_(isolated) is the integrated participator intensity for a long-livedreference, and I_(coupled) is the participator intensity for a mixedmonolayer. Here, in accordance with literature procedures, it wasassumed that all aromatic carbon atoms were equally coupled to theirsurroundings and employed a PTCDI multilayer, for which the constituentmolecules were poorly coupled to their surroundings, as the long-livedreference (FIG. 21. The calculations yielded charge transfer times of11.5±1.5 fs for the P1 monolayer, 8.4±1 fs for the P2 monolayer, 5.2±0.5fs for the P3 monolayer, and 5.7±0.6 fs for the P4 monolayer. Note thatthe errors were calculated by including the signal-to-noise ratio of themeasured resonant spectra and the reported error of the C1s core-holelifetime.

As demonstrated, the observed charge transfer times generally decreasedwith increasing molecular length (i.e. greater number of PDI buildingblocks), as shown in FIG. 23, with a substantial difference betweenmonolayers from P1 and monolayers from P4. The observed trend issurprising, as previous studies have explicitly demonstrated that chargetransfer times roughly increase with length for nitrile- andferrocene-terminated alkanethiol monolayers (in contrast to ourfindings). Indeed, for the P1 to P4 series, the longer macromoleculesextend farther from the surface and should be more poorly coupled withthe substrate, hindering delocalization of the excited electrons andpresumably leading to an increase (rather than a decrease) in theobserved charge transfer times.

To rationalize our unexpected findings, the electronic structure of theP1 to P4 series were analyzed. For this purpose, molecular dynamicssimulations may be used to obtain the equilibrium geometries of ourmacromolecules' PDI-based substructures and density functional theorycalculations to generate the shapes and energies of their correspondingmolecular orbitals. (See, e.g., T. Yanai, et al., Chem. Phys. Lett.,2004, 393, 51; and M. J. Frisch, et. al., Gaussian 09 (Revision D.01),Gaussian, Inc., Wallingford, C T, 2009, the disclosures of which areincorporated herein by reference.)

Molecular Dynamics Simulations for the PDI-Based Macromolecules: Themolecular dynamics simulations for macromolecules P1, P2, P3, and P4were performed with GAFF in NAMD 2.9. The simulations employed theGeneralized Born Implicit Solvent model (GBIS) and a monovalent saltconcentration of 0.115 M. For the simulations, the subunits of P1, P2,P3, and P4 featuring the full-length side chains (FIG. 24) wereparametrized according to established literature protocols and were inturn used for the molecular dynamics simulations. For each simulation,the starting configuration was obtained by turning off the attractivevan der Waals interactions in the force field and setting thetemperature to 500 K, thereby ensuring that all PDI moieties werecompletely separated from one another in an unstacked random openconfiguration. To initiate the simulation, the attractive van der Waalsinteractions were turned on, and the initial temperature was set to 300K. All of the simulations were performed at a constant temperature of300 K for 20 ns, ensuring that steady state was reached. The simulationswere analyzed by monitoring the relative center of mass (COM) distancesand offset angles for every pair of PDIs. The COM distances werecalculated from the atomic coordinates and atomic mass of the individualPDIs. Here, the offset angles were obtained by constructing a vectorfrom the nitrogen closest to the backbone to the nitrogen farthest fromthe backbone for the individual PDIs. The dot product of these vectorsfor every pair of PDIs defined the offset angles used for the analysis.The COM distances and offset angles indicated the relative separationand alignment of the PDIs, respectively, yielding the geometries in FIG.25.

Ground state density functional theory calculations for the subunits ofmacromolecules P1, P2, P3, and P4 (FIG. 25) were performed in Gaussian09. The averaged structures from the molecular dynamics simulations wereused for the subunit geometries. For computational simplicity, the DFTcalculations employed subunits that were substituted with methyl groups(rather than hexaethyleneglycol monomethyl ether) at the imide positionsopposite to the phosphate backbone. The atomic orbitals were expanded inthe cc-pVTZ and 6-31G(d,p) basis sets, and the ground state calculationswere performed with all combinations of the aforementioned basis sets,as well as the CAM-B3LYP, B3LYP, and LC-wPBE functionals. The reportedmolecular orbitals for the LUMO+1 of the various macromolecules wereobserved for all combinations of functionals and basis sets. The resultswe report in the manuscript utilize the CAM-B3LYP functional and thecc-pVTZ basis set. The isosurface plots were rendered in VESTA. (See,e.g., M. J. Frisch, et al., Gaussian 09 (Revision D.01), Gaussian, Inc.,Wallingford Conn., 2009; T. Yanai, et al., Chem. Phys. Lett., 2004, 393,51; and K. Momma, F. Izumi, J. Appl. Crystallogr., 2011, 44, 1272, thedisclosure of which are incorporated herein by reference.)

Interestingly, it is noted that the electron density was delocalizedover either the entirety or majority of our macromolecules' aromaticcores, as exemplified by the isosurface plots of their LUMO+1 orbitals(See FIG. 19). In addition, it is found that P1, P2, P3, and P4 featuredLUMO+1 energies of −0.9 eV, −2.9 eV, −3.2 eV, and −3.1 eV, respectively(note that these values are approximations, as the calculations employfunctionals with limited accuracy and do not take into account solventand substrate effects). Furthermore, in agreement with previouscomputational findings, it is observed that the appearance of multiple,distinct, energetically similar states for the macromolecules. (See,e.g., FIG. 19.) Given these calculations, the measured unexpected trendin the charge transfer times could be rationalized by considering thedelocalization of the LUMO+1 orbitals, as well as the introduction ofthe new energy states, for P1, P2, P3, and P4. This length-dependentevolution in the macromolecules' electronic properties likelyfacilitated efficient delocalization of the excited electrons into theirsurroundings.

In conclusion, the excited-state charge transfer dynamics at PDI-basedmodel organic-inorganic interfaces have been quantified, and the studyholds significance for several reasons. First, the presented approach,in accordance with embodiments, employs entrenched DNA synthesis andself-assembly techniques to produce well defined arrays of columnarstacks of organic semiconductor building blocks at solid substrates.Such precise control is difficult to achieve within traditionalsynthesis and self-assembly contexts, potentially making this strategyvaluable for understanding charge transfer phenomena. Second, thereported measurements reveal an unexpected trend in the rate of chargetransfer from embodiments of macromolecules to their surroundings, whichdecreases, rather than increases, with molecular length. This trend canbe rationalized by considering the evolution in electronic structurethat occurs when organic semiconductors transition from isolatedmolecules to extended solids. Third, the experiments provide access tocharge transfer dynamics at model interfaces with atomic-level chemicalresolution and femtosecond-range temporal resolution. Given thatcore-level excited states share some common features with valence-levelexcited states for π-conjugated organic semiconductors, the strategy mayprove valuable for fundamentally understanding interface-associatedcharge transfer dynamics across a broad range of carbon-based materials.Finally, the calculated charge transfer times of ˜6 to ˜12 fs measuredfor the DNA-like constructs are virtually identical to charge transfertimes of ˜6 fs measured for DNA under analogous conditions. This directcomparison is interesting from the perspective of the DNA conductivityfield and supports the classic notion that duplex DNA sharescharacteristics with one-dimensional aromatic crystals, furtherunderscoring the general applicability of the work. (See, e.g., L. Wang,et al. Appl. Phys. Lett., 2006, 89, 013902; H. S. Kato, et al., Phys.Rev. Lett., 2004, 93, 086403; J. C. Genereux, J. K. Barton, Chem. Rev.,2010, 110, 1642; N. B. Muren, et al., Phys. Chem. Chem. Phys., 2012, 14,13754; and D. D. Eley, D. I. Spivey, Trans. Faraday Soc., 1962, 58, 411,the disclosure of which are incorporated herein by reference.)

Altogether, the methodology, according to embodiments, may open newopportunities for the fabrication of molecular wires, as well as thefundamental study of structure-function relationships in arbitraryorganic materials, nanoscale charge transfer phenomena atdevice-relevant organic-inorganic interfaces, and conductivity inbiological and bioinspired systems.

Example 4: Electrochemical Studies

In another study, self-assembly and spectroscopic characterization ofmonolayers from P1, P2, P3, or P4 were prepared, as illustrated in FIG.14. In the procedure, as described above, clean gold substrates wereincubated with solutions of a plurality of thiol-modified constructsaccording to embodiments, allowing for formation of specific covalentS—Au bonds, and then the modified substrates were treated withmercaptohexanol to enforce an upright molecular wire orientation anddisplace non-specifically physisorbed species. In turn, the averageorientation of the four monolayers' were confirmed to constituentmacromolecules with near edge X-ray absorption fine structurespectroscopy (NEXAFS), which is a surface-sensitive technique thatelucidates the electronic characteristics and orientation ofsurface-confined species. Thus, partial electron yield spectra werecollected and analyzed with the incident electric fields parallel andperpendicular to the surface of our substrates (FIG. 26). Based onliterature precedent for PDI-based materials, the spectras' wereassigned characteristic inequivalent doublets at energies between 284 eVand 286 eV to carbon 1s→π* transitions that are associated with the LUMO(left doublet) and LUMO+1 (right doublet) orbitals, which are localizedon the aromatic core of PDIs (FIG. 26). By evaluating the dependence ofthe LUMO+1 signals' intensity on the polarization of the electric field,we calculated average substrate-relative tilt angles of ˜61±2°, ˜61±2°,˜60±2°, or ˜60±2° for the constituent PDIs of monolayers from P1, P2,P3, or P4, respectively. Overall, the NEXAFS experiments indicated thatthe macromolecules adopted nearly identical upright averageorientations, in analogy to duplexes in backfilled DNA monolayers.

The electrochemical properties of backfilled monolayers from P0 wereinvestigated, which is an analogue of the macromolecules but lacks anyPDIs (FIG. 27A to d). Here, a redox couple at a potential of ˜0.46 V(±0.002) mV vs. Ag/AgCl is observed, which can be attributed to thependant ferrocene moiety (FIG. 27B). The couple featured an anodic tocathodic peak current ratio of 1.07 (±0.04), indicating aquasi-reversible redox reaction, and a linear dependence of the anodicpeak current on the scan rate, indicating a surface bound species (FIG.27C). From the anodic wave, a surface coverage of ˜22 (±4) pmol/cm² iscalculated, which was smaller than the estimated maximum coverages of˜300 and ˜450 pmol/cm² for ferrocene-terminated DNA and alkanethiolmonolayers, respectively, as well as a full width at half maximum (FWHM)of 0.14 (±0.004) V, which was greater than the ideal value of ˜0.091 V.These metrics suggested a relatively dilute monolayer, likely due torepulsive electrostatic interactions between our constructs'negatively-charged backbones. Altogether, the measurements demonstratedthat monolayers from P0 generally resembled analogous ones reported forferrocene-terminated alkanethiols.

Next the rate of electron transfer between the pendant ferrocenemoieties and the gold electrode for P0 was evaluated, as mediated by thephospho-alkane bridge. By analyzing the cyclic voltammograms obtained atdifferent scan rates, it was possible to extract the electron transferrate constant k₀ according to the Laviron approach (FIG. 27D). Thecalculated k₀ for P0 was 9.7 (±1)×10² s⁻¹ (corresponding to aprobe-electrode through-bond distance of 2.29 nm). This value was ingood agreement with rate constants of k₀=6.0×10³ s⁻¹, k₀=1.2×10³ s⁻¹,and k₀=1.0×10² s⁻¹ reported for analogous ferrocene-terminatedalkanethiol monolayers, corresponding to probe-electrode through-bonddistances of 1.84 nm, 2.00 nm, and 2.47 nm, respectively (See Table 1).These observations and analysis indicate that non-resonant tunneling wasthe likely mechanism governing electron transport through monolayersfrom P0.

TABLE 1 Ferrocene k₀ (s⁻¹) Distance FcCONH(CH₂)₇SH 6.6 × 10⁴ 1.53FcCONH(CH₂)₆SH 1.5 × 10⁴ 1.69 FcCONH(CH₂)₉SH 6.0 × 10³ 1.84FcCONH(CH₂)₁₀SH 1.2 × 10³ 2.00 FcCO₂(CH₂)₁₃SH 1.0 × 10² 2.47 Fc(CH₂)₁₆SH2.8 × 10¹ 2.65 FcCONH(CH₂)₁₅SH 7.0 × 10⁰ 2.77 P0 9.7 (±1) × 10² 2.29 P18.2 (±1) × 10² 3.05 P2 8.3 (±0.8) × 10²   3.81 P3 8.8 (±1) × 10² 4.57 P48.2 (±0.8) × 10²   5.33 [a] Electron transfer (ET) distance is definedas the sum of all the bond lengths between the pendant ferrocene and theterminal gold-bound sulphur atom.

The electrochemical properties of backfilled monolayers from P1, P2, P3,or P4 at positive potentials were also investigated (FIG. 28). Thesemonolayers featured reversible redox couples at potentials of ˜0.47 to˜0.52 V vs. Ag/AgCl, anodic to cathodic peak current ratios of ˜1.02 to˜1.16, anodic FWHMs of ˜0.13 V, average surface coverages of ˜20pmol/cm² to ˜25 pmol/cm², and linear plots of peak current as a functionof scan rate (FIG. 29 and Table 1). Altogether, measurements indicatedthat monolayers from P1, P2, P3, or P4 were relatively dilute and thattheir electrochemical characteristics closely resembled not only thoseof P0 but also one another.

The electrochemical properties of backfilled monolayers from P1, P2, P3,or P4 at negative potentials were also investigated (FIG. 30). It wasfound that one to three quasi-reversible redox couples for P1, P2, P3,and P4, with a midpoint potential of ˜−0.4 V vs. Ag/AgCl for the initial(least negative) couple in each instance. Based on literature precedentfor PDIs, these redox signatures were attributed to the macromolecules'LUMOs (and energetically higher orbitals), and by using the pendantferrocenes as internal standards, and reliable LUMO energies of −4.11(±0.01) eV, −4.15 (±0.01) eV, −4.19 (±0.01) eV, and −4.22 (±0.01) eV forP1, P2, P3, and P4, were calculated, respectively. The lowering of theLUMO energies and appearance of multiple energetically similar statesfor the longer macromolecules indicated the likely presence of strongπ-π stacking interactions between the constituent PDIs. Overall, theelectrochemical measurements suggested that the PDI substructuresessentially behaved as single electroactive units.

The rate of electron transfer through backfilled monolayers from P1, P2,P3, or P4 was also calculated. Here, the PDI-based substructures, alongwith their terminal linkers and tethers, served as extended bridgesbetween the pendant ferrocenes and the gold surfaces. From an analysisof cyclic voltammograms obtained at different scan rates for the P1, P2,P3, and P4 monolayers, these macromolecules' respective electrontransfer rate constants k₀ were extracted. The standard electrontransfer rate constants k₀ for mercaptohexanol-backfilled monolayersfrom macromolecules P0, P1, P2, P3, and P4 were determined by followingthe Laviron approach for surface-bound redox-active species undergoing areversible one-electron transfer process. For each of the monolayers,cyclic voltammograms were collected at scan rates between 1 and 4000 Vs⁻¹, and the voltammograms that satisfied the criterion of kineticoverpotentials of η=(E_(p)−E^(0′))>100 mV were used for thecalculations. In this limiting regime, the dependence of theoverpotential on the natural logarithm of the scan rate ln(v) is givenby the equations:

$\begin{matrix}{{{E_{pa} - E^{0^{\prime}}} = {{\left( \frac{RT}{\left( {1 - \alpha} \right){nF}} \right){\ln\left( \frac{\left( {1 - \alpha} \right){nF}}{{RTk}_{f}} \right)}} + {\left( \frac{RT}{\left( {1 - \alpha} \right){nF}} \right)\ln\; v}}}{and}} & \left( {{EQ}.\mspace{14mu} 2} \right) \\{{E_{pc} - E^{0^{\prime}}} = {{{- \left( \frac{RT}{\alpha\;{nF}} \right)}{\ln\left( \frac{\alpha\;{nF}}{{RTk}_{b}} \right)}} - {\left( \frac{RT}{\alpha\;{nF}} \right)\ln\; v}}} & \left( {{EQ}.\mspace{14mu} 3} \right)\end{matrix}$where E_(pa) is the potential of the anodic peak, E_(pc) is thepotential of the cathodic peak, v is the scan rate, α is the electrontransfer coefficient, k_(f) is the forward rate constant, kb is thebackward rate constant, R is the ideal gas constant, T is the absolutetemperature, F is the Faraday constant, and n is the number of electronstransferred. These equations were used to formulate plots of theoverpotential η versus ln v, which featured linear regions foroverpotentials η of >100 mV; as an example, a typical plot for P0(including a fit of the linear regions) is shown in FIG. 27D. Theelectron transfer coefficients α were obtained from the slope of thefits to the linear regions. The electron transfer rate constants k₀ wereobtained from the x-intercepts of the linear regions, which correspondto scan rates v_(a) and v_(c) where η=0 for the anodic and cathodicplots, respectively, and are defined by the equation:

$\begin{matrix}{k_{0} = {\frac{\alpha\;{nFv}_{c}}{RT} = \frac{\left( {1 - \alpha} \right){nFv}_{a}}{RT}}} & \left( {{EQ}.\mspace{14mu} 4} \right)\end{matrix}$

The reported k₀ values correspond to an average of the electron transferrate constants obtained from the anodic and cathodic plots, whichexhibited minor differences (<50 s⁻¹).

Surprisingly for P1, only a small decrease in the electron transfer rateto k₀=8.2 (±1)×10² s⁻¹ was found, despite the greater probe-electrodethrough-bond distance of 3.05 nm, relative to P0 (Table 1). This valuewas in stark contrast to the slower rate constants of k₀=2.8×10¹ s⁻¹ andk₀=7.0×10⁰ s⁻¹ found for ferrocene-terminated alkanethiols withprobe-electrode through-bond distances of 2.65 nm and 2.77 nm,respectively (Table 1). Furthermore, it was discovered that the rateremained almost unchanged for the longer macromolecules, with values ofk₀=8.3 (±0.8)×10² s⁻¹ for P2, k₀=8.8 (±1)×10² s⁻¹ for P3, and k₀=8.2(±0.8)×10² s⁻¹ for P4, despite the substantially increasedprobe-electrode distances of 3.81 nm for P2, 4.57 nm for P3, and 5.33 nmfor P4, respectively (Table 1). Together, the measurements indicatedthat the rate of electron transport through our molecular wires waseffectively not attenuated with length.

To facilitate interpretation of the experimental observations, DFTcalculations were performed. Thus, molecular dynamics (MD) simulationswere used to obtain the lowest free energy (most thermodynamicallystable) atomistic conformations for the PDI-based substructures of P1,P2, P3, and P4 (FIGS. 13 and 25). The molecular dynamics simulations forthe PDI-based substructures for molecular wires P1, P2, P3, and P4 wereperformed with GAFF in NAMD 2.9. The simulations employed theGeneralized Born Implicit Solvent model (GBIS) and a monovalent saltconcentration of 0.115 M. For the simulations, the substructures of P1,P2, P3, and P4 featuring the full length side chains were parameterizedaccording to established literature protocols and were in turn used forthe molecular dynamics simulations. For each simulation, the startingconfiguration was obtained by turning off the attractive van der Waalsinteractions in the force field and setting the temperature to 500 K,thereby ensuring that all PDI moieties were completely separated fromone another in an unstacked random open configuration. To initiate thesimulation, the attractive van der Waals interactions were turned on,and the initial temperature was set to 300 K. All of the simulationswere performed at a constant temperature of 300 K for 20 ns, ensuringthat steady state was reached. The simulations were analyzed bymonitoring the relative center of mass (COM) distances and offset anglesfor every pair of PDIs. The COM distances were calculated from theatomic coordinates and atomic mass of the individual PDIs. Here, theoffset angles were obtained by constructing a vector from the nitrogenclosest to the backbone to the nitrogen farthest from the backbone forthe individual PDIs. The dot product of these vectors for every pair ofPDIs defined the offset angles used for the analysis. The COM distancesand offset angles indicated the relative separation and alignment of thePDIs, respectively, yielding the geometries in FIG. 25.

The simulations revealed that the constituent PDIs of P2, P3, and P4were offset with respect to one another but still featured strong π-πstacking interactions, in agreement with the characteristic changesobserved for the constructs' UV-vis spectra. In turn, simulatedequilibrium geometries and the long-range-corrected CAM-B3LYP functionalwere used to generate the shapes and energies of our fourmacromolecules' HOMOs and LUMOs. Ground state density functional theorycalculations for the substructures of P1, P2, P3, and P4 were performedin Gaussian 09. The averaged structures from the molecular dynamicssimulations were used for the substructure geometries. For computationalsimplicity, the DFT calculations employed PDIs that were substitutedwith methyl groups (rather than hexaethyleneglycol monomethyl ether) atthe imide positions opposite to the phosphate backbone. The atomicorbitals were expanded in the cc-pVTZ and 6-31G(d,p) basis sets, and theground state calculations were performed with all combinations of theaforementioned basis sets, as well as the CAM-B3LYP, B3LYP, and LC-wPBEfunctionals. The results reported utilize the CAM-B3LYP functional andthe cc-pVTZ basis set. The molecular orbitals were obtained in Gaussian09 for the HOMO and LUMO of each PDI-based macromolecule. The isosurfaceplots were rendered in VESTA.

The isosurface plots revealed that the electron density was delocalizedover either the entirety or majority of the substructures' aromaticcores, demonstrating that the constituent PDI moieties were notelectronically independent of one another (FIG. 25). Moreover, thetheoretically-predicted LUMO energies were lowered for the longermacromolecules, with values of −2.66 eV, −3.01 eV, −3.36 eV, and −3.36eV for P1, P2, P3, and P4 respectively, in agreement with the trendfound during the electrochemical measurements (note that the theoreticaland experimental values do not perfectly match due to the limitedaccuracy of the functional and the exclusion of solvent and/or substrateeffects). Overall, the calculations shed insight into the electronicstructure of our constructs and provided a rationale for theirelectrochemical behavior as single electroactive units.

The experimental observations warrant a discussion of the likelymechanism governing electron transport for P1, P2, P3, and P4. Here, itis noted that constructs according to embodiments consist of severaldistinct components: π-conjugated PDI-based substructures, primarilysaturated tethers bound to the electrodes, and primarily saturatedlinkers to the pendant ferrocene probes. Based on previous findings forferrocene-terminated alkanethiols (as well as on experimentalobservations for monolayers from P0), electrons are likely transportedthrough the macromolecules' tethers and linkers via a rate-limiting andloosely non-resonant tunneling mechanism. Furthermore, based on reportsof rapid electron hopping rates of >10⁷ s⁻¹ and femtosecond chargetransfer times in analogous PDI-based ensembles, (as well as ourcomputational observations for P1, P2, P3, and P4), electrons are likelytransported through the macromolecules' PDI-based substructures via arapid and nearly lossless resonant tunneling mechanism. The combinationof these two mechanisms accounts for the observation of essentiallylength-independent charge transport for embodiments of the constructs.

In summary, embodiments provide a series of polymeric PDI chimericmolecular wires having unique charge transport properties. These studieshold significance for several reasons. First, the reported syntheticmethodology employs straightforward, readily accessible bioconjugatechemistry techniques to prepare well-defined PDI-based polymermacromolecules. In principle, this approach possesses few limitationsand could be used to prepare a variety of modular, sequence-variableconstructs from arbitrary organic semiconductor building blocks. Second,the electrochemical strategy makes it possible to simultaneously measurecharge transport rates and monitor changes in electronic structure. Suchexperimental flexibility underscores the value of the methodology forthe study of nanoscale charge transport phenomena. Finally, themeasurements reveal that the rate of electron transport throughembodiments of molecular wires is not attenuated with length, as issummarized in FIG. 31. The reported constructs may thus prove valuableas archetypes for the construction of novel high-performance electroniccomponents. Altogether, the findings hold broad relevance within thecontext of carbon-based molecular, organic, and biological electronicsand may afford new opportunities for the development of advancedminiaturized circuits.

DOCTRINE OF EQUIVALENTS

As can be inferred from the above discussion, the above-mentionedconcepts can be implemented in a variety of arrangements in accordancewith embodiments of the invention. Accordingly, although the presentinvention has been described in certain specific aspects, manyadditional modifications and variations would be apparent to thoseskilled in the art. It is therefore to be understood that the presentinvention may be practiced otherwise than specifically described. Thus,embodiments of the present invention should be considered in allrespects as illustrative and not restrictive.

What is claimed is:
 1. A compound comprising:

wherein R¹ is a phosphoramidite moiety; R² is selected from the groupconsisting of H, an alkyl, an aryl, a phosphate surfactant, apolyglycerol dendron, a cyclodextrin, a polyethylene glycol, and acarboxylate; R³ is selected from the group consisting of H, F, Cl, Br,CN, an alkyl, an aryl, an aryloxy, a polyethylene glycol and

R⁴ is selected from the group consisting of H, F, Cl, Br, CN, an alkyl,an aryl, an aryloxy, a polyethylene glycol, and

R⁵ is selected from the group consisting of H, F, Cl, Br, CN, an alkyl,an aryl, an aryloxy, a polyethylene glycol, and

R⁶ is selected from the group consisting of H, F, Cl, Br, CN, an alkyl,an aryl, an aryloxy, a polyethylene glycol, and

R⁷ is selected from the group consisting of H, F, Cl, Br, and CN; R⁸ isselected from the group consisting of H, F, Cl, Br, and CN; R⁹ isselected from the group consisting of H, F, Cl, Br, and CN; and R¹⁹ isselected from the group consisting of H, F, Cl, Br, and CN.
 2. Thecompound of claim 1, wherein the phosphoramidite moiety is

wherein DMT is 4,4′-dimethoxytrityl.
 3. The compound of claim 1, whereinthe polyethylene glycol is selected for at least one of: R², R³, R⁴, R⁵,and R⁶; and the selected polyethylene glycol is further selected fromthe group consisting of:

where n and m are positive integers;

where n, m, and o are positive integers;

where n is a positive integer; and a branched polyethylene glycol. 4.The compound of claim 1, wherein the carboxylate is selected for atleast one of: R², R³, R⁴, R⁵, and R⁶; and the selected carboxylate isfurther selected from the group consisting of: Newkome-type carboxylate,polymeric carboxylate, and


5. The compound of claim 1, wherein the phenyl is selected for at leastone of: R², R³, R⁴, R⁵, and R⁶; and the selected phenyl is furthersubstituted.
 6. The compound of claim 5, wherein the phenyl is furthersubstituted with a polyethylene glycol chain.
 7. An engineered polymercomprising: a set of two or more monomers that are sequentially linkedby a phosphate backbone, comprising the following formula:

wherein T1 and T2 are termini; wherein i is a positive integer; andwherein the set of monomers comprise a plurality of perylene diimides,each perylene diimide having the following structure:

wherein R¹ is the link to the phosphate backbone; R² is selected fromthe group consisting of H, an alkyl, an aryl, a phosphate surfactant, apolyglycerol dendron, a cyclodextrin, a polyethylene glycol, and acarboxylate; R³ is selected from the group consisting of H, F, Cl, Br,CN, an alkyl, an aryl, an aryloxy, a polyethylene glycol, and

R⁴ is selected from the group consisting of H, F, Cl, Br, CN, an alkyl,an aryl, an aryloxy, a polyethylene glycol, and

R⁵ is selected from the group consisting of H, F, Cl, Br, CN, an alkyl,an aryl, an aryloxy, a polyethylene glycol, and

R⁶ is selected from the group consisting of H, F, Cl, Br, CN, an alkyl,an aryl, an aryloxy, a polyethylene glycol, and

R⁷ is selected from the group consisting of H, F, Cl, Br, and CN; R⁸ isselected from the group consisting of H, F, Cl, Br, and CN; R⁹ isselected from the group consisting of H, F, Cl, Br, and CN; and R¹⁹ isselected from the group consisting of H, F, Cl, Br, and CN.
 8. Thepolymer of claim 7, wherein, for at least one perylene diimide, thepolyethylene glycol is selected for at least one of: R², R³, R⁴, R⁵, andR⁶; and the selected polyethylene glycol is further selected from thegroup consisting of:

where n and m are positive integers;

where n, m, and o are positive integers;

where n is a positive integer; and a branched polyethylene glycol. 9.The polymer of claim 7, wherein, for at least one perylene diimide, thecarboxylate is selected for at least one of: R², R³, R⁴, R⁵, and R⁶; andthe selected carboxylate is further selected from the group consistingof: Newkome-type carboxylate, polymeric carboxylate, and


10. The polymer of claim 7, wherein, for at least one perylene diimide,the phenyl is selected for at least one of: R², R³, R⁴, R⁵, and R⁶; andthe selected phenyl is further substituted.
 11. The compound of claim10, wherein the phenyl is further substituted with a polyethylene glycolchain.
 12. The polymer of claim 7, wherein the set of monomers comprisea majority of perylene diimides.
 13. The polymer of claim 8, wherein thepolymer is engineered to a precise length and sequence.
 14. The polymerof claim 13 further comprising a monodisperse plurality of the polymer.15. The polymer of claim 7, wherein i is greater than
 20. 16. Thepolymer of claim 7, wherein i is greater than
 100. 17. The polymer ofclaim 7, wherein the plurality of perylene diimides comprises at leastone perylene diimide having a different chemical structure than at leastone other perylene diimide within the plurality.
 18. The polymer ofclaim 7, wherein, the polymer has an engineered sequence of monomers.19. The polymer of claim 7, wherein T¹ and T² are each independentlyselected from the group consisting of an amino group, a hydroxyl group,a carbonyl group, ferrocene and thiol.
 20. A method of forming thepolymer of claim 7, comprising: providing a set of two or more compoundshaving a phosphoramidite moiety, wherein the set of compounds comprisesa plurality of perylene diimides having a phosphoramidite moiety;wherein each perylene diimide of the plurality of perylene diimidescomprise:

wherein R¹ is the phosphoramidite moiety; R² is selected from the groupconsisting of H, an alkyl, an aryl, a phosphate surfactant, apolyglycerol dendron, a cyclodextrin, a polyethylene glycol, acarboxylate, a phenyl, an ammonium salt, an amide, and a crown ether; R³is selected from the group consisting of H, F, Cl, Br, CN, an alkyl, anaryl, an aryloxy, a polyethylene glycol, and

R⁴ is selected from the group consisting of H, F, Cl, Br, CN, an alkyl,an aryl, an aryloxy, a polyethylene glycol, and

R⁵ is selected from the group consisting of H, F, Cl, Br, CN, an alkyl,an aryl, an aryloxy, a polyethylene glycol, and

R⁶ is selected from the group consisting of H, F, Cl, Br, CN, an alkyl,an aryl, an aryloxy, a polyethylene glycol, and

R⁷ is selected from the group consisting of H, F, Cl, Br, and CN; R⁸ isselected from the group consisting of H, F, Cl, Br, and CN; R⁹ isselected from the group consisting of H, F, Cl, Br, and CN; and R¹⁰ isselected from the group consisting of H, F, Cl, Br, and CN; anditeratively linking the set of compounds via the phosphoramidite moietyto form a phosphate backbone via a nucleoside polymerization protocol.21. The method of claim 20, wherein the set of compounds are linked suchthat a specific arrangement and number of monomers is obtained.
 22. Themethod of claim 21, wherein the iteratively linking the set of compoundsis performed in an automated oligosynthesizer.